Two cell lines (CT26 colon carcinoma and 4T1 breast cancer) Two organs (spleen and tumors) With and without checkpoint inhibitor treatment
I dont know how to remove thw white space to make the plot bigger lof fold change of barcode reads across cell lines and treatments
Now selction criteria is rank < 2% and expression > 0.1 TPM Can these selection critereia be optimized
Data set is to small to see a clear pattern in immnunugenic and non-immunugenic neoepitopes Further work: Try out with more data, when more peptides are screened Is the results the same for human data Make packages for human data
We have developed barcc package And a shiny app for rapid visualization of the data We have developed barcc package, which includes a shiny app for rapid visualization of the data.